Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 19
Found at i:1205155 original size:22 final size:22
Alignment explanation
Indices: 1205124--1205195 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
1205114 CTGAGTGGCA
1205124 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
1205147 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
* *
1205169 TATG-AGTTGTCCCGAATGACC
1 TATGAATTTGTCCCGAAGGACC
1205190 TATGAA
1 TATGAA
1205196 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.43
22 22 0.50
23 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:1205180 original size:21 final size:21
Alignment explanation
Indices: 1205132--1205194 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1205122 CATATGAAAT
* *
1205132 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
1205154 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
*
1205175 TTGTCCCGAATGACCTATGA
1 TTGTCCCGAAGGACCTATGA
1205195 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:1206670 original size:64 final size:64
Alignment explanation
Indices: 1206570--1206730 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
1206560 TAATGAAGGT
* * *
1206570 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGAT-ATTTGTATTT-AATGG
1 ATGCATCGATGCACTACA-TATGCATCGATGCATAAATCATATTCGATGATTTCTATTTAAAT--
*
1206633 GG
63 GC
* * *
1206635 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATGATTTCTATTTAAATGC
* *
1206699 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACATATGCATCGATGCA
1206731 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 56 0.67
65 25 0.30
66 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACATATGCATCGATGCATAAATCATATTCGATGATTTCTATTTAAATGC
Found at i:1209965 original size:22 final size:22
Alignment explanation
Indices: 1209934--1210002 Score: 104
Period size: 22 Copynumber: 3.1 Consensus size: 22
1209924 CTGAGTGGCA
1209934 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
1209957 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
*
1209979 TATG-AGTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
1210000 TAT
1 TAT
1210003 AAAACCCTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 19 0.44
22 21 0.49
23 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:1209990 original size:21 final size:22
Alignment explanation
Indices: 1209942--1210002 Score: 97
Period size: 21 Copynumber: 2.8 Consensus size: 22
1209932 CATATGAAAT
* *
1209942 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATGAAG
1209964 TTGTCCCGAAGGACCTATG-AG
1 TTGTCCCGAAGGACCTATGAAG
1209985 TTGTCCCGAAGGACCTAT
1 TTGTCCCGAAGGACCTAT
1210003 AAAACCCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (22 bp):
TTGTCCCGAAGGACCTATGAAG
Found at i:1211512 original size:63 final size:64
Alignment explanation
Indices: 1211380--1211539 Score: 175
Period size: 63 Copynumber: 2.5 Consensus size: 64
1211370 TAATGAAGGT
* * *
1211380 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATATTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATATTTCTATTTAAT-GGC
** * *
1211445 ATGCATCGATGCACTAC-TTATGCATCGA-GCATAAATCATATTCGATGTTTTCTATTTAAAT-T
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGAT-ATTTCTATTT-AATGG
1211507 C
64 C
* **
1211508 ATGCATCGATGCACTGCA-TGTGCATCGATGCA
1 ATGCATCGATGCACTACACCATGCATCGATGCA
1211540 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 42 0.51
64 20 0.24
65 20 0.24
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATATTTCTATTTAATGGC
Found at i:1214771 original size:22 final size:22
Alignment explanation
Indices: 1214740--1214811 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
1214730 CTGAGTGGCA
1214740 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
1214763 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
*
1214785 TATG-AGTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
1214806 TATGAA
1 TATGAA
1214812 ACCCTCGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.44
22 22 0.49
23 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:1214796 original size:21 final size:21
Alignment explanation
Indices: 1214748--1214810 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
1214738 CATATGAAAT
* *
1214748 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
1214770 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
1214791 TTGTCCCGAAGGACCTATGA
1 TTGTCCCGAAGGACCTATGA
1214811 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:1216311 original size:64 final size:61
Alignment explanation
Indices: 1216160--1216318 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 61
1216150 TAATGAAGGT
* * * *
1216160 ATGCATCGATGCACTACACCATGCATCGATGCATAATCCTATTCGATGTTTGTATTAATGGGG
1 ATGCATCGATGCACTACA-TATGCATCGATGCATAATCATATTCGATGTTTCTATTAAT-GGC
* *
1216223 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCATATTCGATGTTTTCTATTTAAAT-TC
1 ATGCATCGATGCACTACATATGCATCGATGCAT-AATCATATTCGATG-TTTCTA-TT-AATGGC
* *
1216287 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACATATGCATCGATGCA
1216319 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
62 14 0.17
63 30 0.36
64 34 0.41
65 2 0.02
66 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (61 bp):
ATGCATCGATGCACTACATATGCATCGATGCATAATCATATTCGATGTTTCTATTAATGGC
Found at i:1218661 original size:91 final size:89
Alignment explanation
Indices: 1218520--1218699 Score: 342
Period size: 91 Copynumber: 2.0 Consensus size: 89
1218510 TCCATTACCT
1218520 GGGGTCATGTCCACCTTGTTGACCCTGCGTTTCCCATTCAAAGCATTGTATAGCTCTACCAAGTG
1 GGGGTCATGTCCACCTTGTTGACCCTGCGTTTCCCATTCAAAGCATTGTATAGCTCTACCAAGTG
1218585 CCAACAAAATCATCCGCAAGCCCA
66 CCAACAAAATCATCCGCAAGCCCA
1218609 GGGGTCATGTCCACCTTGTCTGACCCTGCGTTTCCCCATTCAAAGCATTGTATAGCTCTACCAAG
1 GGGGTCATGTCCACCTTGT-TGACCCTGCGTTT-CCCATTCAAAGCATTGTATAGCTCTACCAAG
1218674 TGCCAACAAAATCATCCGCAAGCCCA
64 TGCCAACAAAATCATCCGCAAGCCCA
1218700 TGGCAGCGCC
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 19 0.21
90 13 0.15
91 57 0.64
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (89 bp):
GGGGTCATGTCCACCTTGTTGACCCTGCGTTTCCCATTCAAAGCATTGTATAGCTCTACCAAGTG
CCAACAAAATCATCCGCAAGCCCA
Found at i:1225370 original size:80 final size:80
Alignment explanation
Indices: 1225268--1225427 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
1225258 ATTGCTTTTG
1225268 TTTTAGGATAAGGTGTCGATGGGACGACAATCCTATGCTTCTACTTCAATTTCCTGACTCATCAA
1 TTTTAGGATAAGGTGTCGATGGGACGACAATCCTATGCTTCTACTTCAATTTCCTGACTCATCAA
1225333 T-CACTACCAAACTT
66 TCCACTACCAAACTT
1225347 TTTTAGGATAAAGGTGTCGATGGGACGACAATCCTATGCTTCTACTTCAATTTCCTGACTCATCA
1 TTTTAGGAT-AAGGTGTCGATGGGACGACAATCCTATGCTTCTACTTCAATTTCCTGACTCATCA
1225412 ATCCACTACCAAACTT
65 ATCCACTACCAAACTT
1225428 CCACCTCAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 9 0.11
80 57 0.72
81 13 0.16
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (80 bp):
TTTTAGGATAAGGTGTCGATGGGACGACAATCCTATGCTTCTACTTCAATTTCCTGACTCATCAA
TCCACTACCAAACTT
Found at i:1243907 original size:19 final size:18
Alignment explanation
Indices: 1243877--1243912 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1243867 TATTTTACGC
1243877 ATTTTAATTTTAATTTGA
1 ATTTTAATTTTAATTTGA
*
1243895 ATTTTAGATTTTATTTTG
1 ATTTTA-ATTTTAATTTG
1243913 TTATGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTAATTTGA
Found at i:1254451 original size:137 final size:136
Alignment explanation
Indices: 1254200--1254970 Score: 873
Period size: 137 Copynumber: 5.8 Consensus size: 136
1254190 TATTTTAGGA
* * *
1254200 AACATCACCCTTAGATAACCATACGTCCTCATCACGAAGGAACCGTATTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* *
1254265 AAGATGGCTAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCTTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTC-TCATCACA
*
1254330 AAGGAGG
130 AAGGAGC
* * *
1254337 AACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACTGTGCTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * * *
1254402 AAGATGGCCAAACATCCTCATCACGAAGGAACAATGTCATCCATTGATCAG-ACTC-CATCACAA
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCTCATCACAA
1254465 AGGAGC
131 AGGAGC
* * * *
1254471 AACATCATCCTTAGATAACCAAAAGTGCTCATCATGAAAGAACCGTGTTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* *
1254536 AAGATGGCCAGACGT-TTCATCACGAAGGAATAATGTCATCCACCGATCAGAACTC-C-T-----
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCTCATCACAA
1254593 ------
131 AGGAGC
** * * *
1254593 --CATCATCCTTAGATAGGCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * * * *
1254656 AAGATGGCCAGACGTCCTCATCACAAAGGAACAATGCCATCCACCGATCAGAACTCCTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACT-CTCATCACA
1254721 AAGGAGC
130 AAGGAGC
* * * * *
1254728 AACATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTTAAATATATTTA
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* ** * * *
1254793 AAGATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTTCTCATCACG
66 AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAAC-TCTCATCACA
1254858 AAGGAGTC
130 AAGGAG-C
* * * *
1254866 -ACTTCATTCTTAGATAACCAGACGTCCTCATCACGAAGGAATCGTGTTA--TCAATATTTATCT
1 AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAA-A--TATCT
* * * * * * *
1254928 CTAAAAATGACCAAATGTCCTCAACACGAAGGAACAATGTCAT
63 TTAAAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCAT
1254971 ACACCAGTTT
Statistics
Matches: 555, Mismatches: 56, Indels: 45
0.85 0.09 0.07
Matches are distributed among these distances:
120 70 0.13
121 35 0.06
122 1 0.00
123 1 0.00
124 1 0.00
133 32 0.06
134 88 0.16
135 3 0.01
136 5 0.01
137 275 0.50
138 44 0.08
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (136 bp):
AACATCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
AAGATGGCCAGACGTCTTCATCACGAAGGAACAATGTCATCCATCGATCAGAACTCTCATCACAA
AGGAGC
Found at i:1255138 original size:3 final size:3
Alignment explanation
Indices: 1255130--1255154 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1255120 TGTCACATAC
1255130 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1255155 AATAATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1262197 original size:40 final size:40
Alignment explanation
Indices: 1262114--1262226 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
1262104 TTGTCATTGG
* * *
1262114 GTGTTAGTGTGAG-TTT-TTGTTGGTTTGGGGTATGTATGG
1 GTGTTTGTGTGAGTTTTGTTG-TGGTTTGGGGTATATATGA
1262153 GTGTTTGTGTGAGTTTTGTTGTGGTTTGGGGTATATATGA
1 GTGTTTGTGTGAGTTTTGTTGTGGTTTGGGGTATATATGA
* * *
1262193 GTGTTTATGTGTGTGTTTGTTGT-GTTTGAGGTAT
1 GTGTTTGTGTGAGT-TTTGTTGTGGTTTGGGGTAT
1262227 GTATTATTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
39 12 0.18
40 42 0.65
41 11 0.17
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (40 bp):
GTGTTTGTGTGAGTTTTGTTGTGGTTTGGGGTATATATGA
Found at i:1264356 original size:29 final size:31
Alignment explanation
Indices: 1264266--1264368 Score: 192
Period size: 31 Copynumber: 3.4 Consensus size: 31
1264256 ATCTCTAAAT
1264266 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1264297 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1264328 TGTGGCTGCAACCA-A-CATCAAGGGTTTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1264357 TGTGGCTGCAAC
1 TGTGGCTGCAAC
1264369 ATGATTAGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 26 0.36
30 1 0.01
31 45 0.62
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (31 bp):
TGTGGCTGCAACCACAGCATCAAGGGTTTAA
Found at i:1267759 original size:11 final size:11
Alignment explanation
Indices: 1267743--1267779 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
1267733 TAAAACACAT
1267743 GGGCTGCTAAG
1 GGGCTGCTAAG
1267754 GGGCTGCTAAGG
1 GGGCTGCTAA-G
1267766 GGGCTGCTAAG
1 GGGCTGCTAAG
1267777 GGG
1 GGG
1267780 GGGGCTGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (11 bp):
GGGCTGCTAAG
Found at i:1267788 original size:15 final size:12
Alignment explanation
Indices: 1267743--1267780 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
1267733 TAAAACACAT
1267743 GGGCTGCTAA-G
1 GGGCTGCTAAGG
1267754 GGGCTGCTAAGG
1 GGGCTGCTAAGG
1267766 GGGCTGCTAAGG
1 GGGCTGCTAAGG
1267778 GGG
1 GGG
1267781 GGGCTGCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.16, C:0.16, G:0.53, T:0.16
Consensus pattern (12 bp):
GGGCTGCTAAGG
Found at i:1268741 original size:31 final size:31
Alignment explanation
Indices: 1268703--1268808 Score: 196
Period size: 31 Copynumber: 3.5 Consensus size: 31
1268693 TCTCTAAAAT
1268703 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1268734 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
*
1268765 TGTGGCTGCAACCACAACATCAAGGG-TTAA
1 TGTGGCTGCAACCACAGCATCAAGGGTTTAA
1268795 TGTGGCTGCAACCA
1 TGTGGCTGCAACCA
1268809 TGATTAGTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
30 18 0.24
31 56 0.76
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (31 bp):
TGTGGCTGCAACCACAGCATCAAGGGTTTAA
Found at i:1270230 original size:28 final size:27
Alignment explanation
Indices: 1270207--1270260 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
1270197 TATGGGTGTT
1270207 TGTGTGAGTTTGTTGTGGTTTGGGGTAA
1 TGTGTGAGTTTGTTGT-GTTTGGGGTAA
* *
1270235 TGTGTGTGTTTGTTGTGTTTGAGGTA
1 TGTGTGAGTTTGTTGTGTTTGGGGTA
1270261 TGTATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.09, C:0.00, G:0.41, T:0.50
Consensus pattern (27 bp):
TGTGTGAGTTTGTTGTGTTTGGGGTAA
Found at i:1270244 original size:38 final size:37
Alignment explanation
Indices: 1270160--1270255 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 37
1270150 TTCTTGTCAT
*
1270160 TGGGTGTTAGTGTGAGTTTTGTTGTGGTTGGGGTATGTA
1 TGGGTGTTTGTGTGAG-TTTGTTGTGGTTGGGGTATG-A
1270199 TGGGTGTTTGTGTGAGTTTGTTGTGGTTTGGGGTAATG-
1 TGGGTGTTTGTGTGAGTTTGTTGTGG-TTGGGGT-ATGA
* *
1270237 TGTGTGTTTGT-TGTGTTTG
1 TGGGTGTTTGTGTGAGTTTG
1270256 AGGTATGTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 7 0.13
38 20 0.38
39 22 0.42
40 3 0.06
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (37 bp):
TGGGTGTTTGTGTGAGTTTGTTGTGGTTGGGGTATGA
Found at i:1274641 original size:17 final size:17
Alignment explanation
Indices: 1274602--1274658 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
1274592 AAGTATGTTG
* *
1274602 TTCATTAAAGAATGCAT
1 TTCATTTAAGAATGTAT
* *
1274619 TGCATTTAAGCATGTAT
1 TTCATTTAAGAATGTAT
* * *
1274636 TTCATTTAGGGATGTAG
1 TTCATTTAAGAATGTAT
1274653 TTCATT
1 TTCATT
1274659 ATGGATCTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (17 bp):
TTCATTTAAGAATGTAT
Found at i:1275726 original size:2 final size:2
Alignment explanation
Indices: 1275719--1275810 Score: 177
Period size: 2 Copynumber: 46.5 Consensus size: 2
1275709 ATAAACTCAA
1275719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1275761 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1275802 AT AT AT AT A
1 AT AT AT AT A
1275811 CCATTTCCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 88 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1276245 original size:23 final size:23
Alignment explanation
Indices: 1276219--1276287 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1276209 CACCACAGCT
* *
1276219 CGTATAAATGCATCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1276242 CGTAGAATTGCACCTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
1276265 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1276288 TATAAGATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1281982 original size:17 final size:17
Alignment explanation
Indices: 1281940--1281982 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
1281930 AAGTATGTTG
*
1281940 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
*
1281957 TTGCATTTAAGCATGTAT
1 TT-CATTTAAGCATGCAT
1281975 TTCATTTA
1 TTCATTTA
1281983 GGGAAGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:1282106 original size:17 final size:17
Alignment explanation
Indices: 1282056--1282108 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
1282046 TGAAGAAAGT
*
1282056 TAGTTCGTTAATTAAAC
1 TAGTTCATTAATTAAAC
* * *
1282073 TGGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
1282090 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
1282107 TA
1 TA
1282109 ACTCTTAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:1284635 original size:19 final size:21
Alignment explanation
Indices: 1284579--1284634 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
1284569 CAAACATGAA
*
1284579 ATAATTGATTAGTATGAAA-AT
1 ATAATTGATTA-TATAAAATAT
1284600 ATAATT-A-TATATAAAATAT
1 ATAATTGATTATATAAAATAT
1284619 ATAATTGATTA-ATAAA
1 ATAATTGATTATATAAA
1284635 TGAATATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 7 0.23
21 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
ATAATTGATTATATAAAATAT
Found at i:1285856 original size:22 final size:23
Alignment explanation
Indices: 1285789--1285857 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 23
1285779 TTTTATAAAT
*
1285789 ATATTTTAATTAATTTAGATTTTTA
1 ATATTTT-A-TAATTTAGATATTTA
*
1285814 ACTAATTTATAA-TTATG-TATTTA
1 A-TATTTTATAATTTA-GATATTTA
1285837 ATATTTTATAATTTA-ATATTT
1 ATATTTTATAATTTAGATATTT
1285858 TACAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
22 14 0.38
23 12 0.32
24 4 0.11
25 2 0.05
26 5 0.14
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATTTTATAATTTAGATATTTA
Found at i:1285867 original size:15 final size:15
Alignment explanation
Indices: 1285834--1285868 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1285824 AATTATGTAT
* *
1285834 TTAATATTTTATAAT
1 TTAATATTTTACAAA
1285849 TTAATATTTTACAAA
1 TTAATATTTTACAAA
1285864 TTAAT
1 TTAAT
1285869 TTAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATATTTTACAAA
Found at i:1287651 original size:21 final size:21
Alignment explanation
Indices: 1287621--1287668 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
1287611 TCTTGTATAC
*
1287621 TACATTATTATCCTGCACGCAA
1 TACA-TATTATCCTGCACACAA
1287643 TACATATTATCCTGCACACAA
1 TACATATTATCCTGCACACAA
1287664 TACAT
1 TACAT
1287669 GCTTTTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (21 bp):
TACATATTATCCTGCACACAA
Found at i:1289955 original size:2 final size:2
Alignment explanation
Indices: 1289948--1289975 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1289938 ATGTACCAAA
1289948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1289976 TATGTGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1290145 original size:15 final size:15
Alignment explanation
Indices: 1290121--1290154 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1290111 GCAAAAATTA
1290121 AAATTATAAAGACTT
1 AAATTATAAAGACTT
*
1290136 AAATTCTAAAGACTT
1 AAATTATAAAGACTT
1290151 AAAT
1 AAAT
1290155 GTAAACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (15 bp):
AAATTATAAAGACTT
Found at i:1292901 original size:9 final size:9
Alignment explanation
Indices: 1292887--1292919 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1292877 AGGTAGATCA
1292887 TTATTTTAT
1 TTATTTTAT
1292896 TTATTTTAT
1 TTATTTTAT
1292905 TT-TATTTAT
1 TTAT-TTTAT
1292914 TTATTT
1 TTATTT
1292920 GAATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:1292906 original size:14 final size:13
Alignment explanation
Indices: 1292887--1292919 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
1292877 AGGTAGATCA
1292887 TTATTTTATTTATT
1 TTATTTTATTTA-T
1292901 TTATTTTATTTAT
1 TTATTTTATTTAT
1292914 TTATTT
1 TTATTT
1292920 GAATAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:1294093 original size:34 final size:34
Alignment explanation
Indices: 1294021--1294099 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
1294011 AACACAGTCA
* *
1294021 TCAATTACATTCTAAATCCCAAAATCCAAAATATT
1 TCAATTACA-TCTAAAACCCAAAATCCAAAATACT
*
1294056 TCAATTACAT-TAAAACCTCAAATTCCAAAATACT
1 TCAATTACATCTAAAACC-CAAAATCCAAAATACT
1294090 TCAATTACAT
1 TCAATTACAT
1294100 ACCCAACCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 6 0.15
34 25 0.62
35 9 0.22
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.32
Consensus pattern (34 bp):
TCAATTACATCTAAAACCCAAAATCCAAAATACT
Found at i:1294546 original size:148 final size:143
Alignment explanation
Indices: 1294269--1294556 Score: 432
Period size: 148 Copynumber: 2.0 Consensus size: 143
1294259 AAATACTCAA
** *** *
1294269 TTCAGTTTATAAAATAGTTGACTCGGAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGACTCAAAAAAATTTCAATTTGAGTTTATAAAATTTAAATCAAGTC
* * *
1294334 GAATTGAATTTTCGAGTTTTTGTTTAAAGTTAATTATAAATATTTATCATATTATAATATTATTT
66 GAATTGAATTTTCGAGTTTCTGTTTAAAGTTAATTATAAATATTTATAATACTATAATATTATTT
1294399 GATTCTAATTCAG
131 GATTCTAATTCAG
*
1294412 TTCAGTTTATAAAATAGTTTACTCAAAAAAATTTCAATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGACTCAAAAAAATTTCAATTTGAGTTTATAAAATTTAAATCAAGTC
*
1294477 GAATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
66 -----GAATTGAATTTTCGAGTTTCTGTTTAAAGTTAATTATAAATATTTATAATACTATAATAT
1294542 TATTTGATTCTAATT
126 TATTTGATTCTAATT
1294557 AAAATAGTTT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
143 58 0.45
148 71 0.55
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (143 bp):
TTCAGTTTATAAAATAGTTGACTCAAAAAAATTTCAATTTGAGTTTATAAAATTTAAATCAAGTC
GAATTGAATTTTCGAGTTTCTGTTTAAAGTTAATTATAAATATTTATAATACTATAATATTATTT
GATTCTAATTCAG
Found at i:1295114 original size:35 final size:36
Alignment explanation
Indices: 1295062--1295133 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
1295052 CATGTAACTA
*
1295062 AAGTATTTTTGAAATTTGAGGTTTATAATATAATTG
1 AAGTATTTTTGAAATTTGAGGTTTAAAATATAATTG
* * *
1295098 AAGTA-TTTTGGAATTTGGGGTTTAAAATGTAATTG
1 AAGTATTTTTGAAATTTGAGGTTTAAAATATAATTG
1295133 A
1 A
1295134 TGACTGTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (36 bp):
AAGTATTTTTGAAATTTGAGGTTTAAAATATAATTG
Found at i:1299137 original size:26 final size:26
Alignment explanation
Indices: 1299106--1299202 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 26
1299096 CATAGTTTTT
*
1299106 CTAAGCTATTTCTCGTCCTTGCTTTG
1 CTAAGCTATTTCTCATCCTTGCTTTG
1299132 CTAAGCT-TTT-TCATTCTCTAATAGCTTTG
1 CTAAGCTATTTCTCA-TC-CT--T-GCTTTG
* * * *
1299161 TTAAGCTATTTCTCATTCTGGCTTTT
1 CTAAGCTATTTCTCATCCTTGCTTTG
*
1299187 CTAAGCTTTTTCTCAT
1 CTAAGCTATTTCTCAT
1299203 ATTCCTTCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.04
25 5 0.09
26 28 0.49
28 1 0.02
29 14 0.25
30 4 0.07
31 3 0.05
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.49
Consensus pattern (26 bp):
CTAAGCTATTTCTCATCCTTGCTTTG
Found at i:1299167 original size:55 final size:55
Alignment explanation
Indices: 1299090--1299198 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
1299080 GCTTCATCTT
* * * *
1299090 TTCTCTCATAGTTTTTCTAAGCTATTTCTCGTCCTTGCTTTGCTAAGCTTTTTCA
1 TTCTCTAATAGTTTGTCTAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTCA
* *
1299145 TTCTCTAATAGCTTTGT-TAAGCTATTTCTCATTCTGGCTTTTCTAAGCTTTTTC
1 TTCTCTAATAG-TTTGTCTAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTC
1299199 TCATATTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 43 0.91
56 4 0.09
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (55 bp):
TTCTCTAATAGTTTGTCTAAGCTATTTCTCATCCTGGCTTTGCTAAGCTTTTTCA
Found at i:1301425 original size:2 final size:2
Alignment explanation
Indices: 1301418--1301451 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1301408 TGATAATTCT
*
1301418 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1301452 TCTATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:1301731 original size:16 final size:16
Alignment explanation
Indices: 1301710--1301740 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1301700 ATGATACCTC
1301710 ACAAAAAATGACTTCT
1 ACAAAAAATGACTTCT
1301726 ACAAAAAATGACTTC
1 ACAAAAAATGACTTC
1301741 GCGATTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (16 bp):
ACAAAAAATGACTTCT
Found at i:1303547 original size:46 final size:46
Alignment explanation
Indices: 1303480--1303569 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
1303470 TTAAAATGAA
1303480 ATGTTATATTTTAAAATGTTATAACATCGATCGAATTATAATCTAT
1 ATGTTATATTTTAAAATGTTATAACATCGATCGAATTATAATCTAT
* *
1303526 ATGTTATATTTTAAAATGTTATAACGTCGATCGAATTCTAATCT
1 ATGTTATATTTTAAAATGTTATAACATCGATCGAATTATAATCT
1303570 TATTTAACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (46 bp):
ATGTTATATTTTAAAATGTTATAACATCGATCGAATTATAATCTAT
Found at i:1304378 original size:23 final size:21
Alignment explanation
Indices: 1304330--1304385 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
1304320 TTTTATAAAC
*
1304330 ATTATATTATATTTTAATTCA
1 ATTATATTATATTTTAACTCA
1304351 ATTATATTTATATTTTTAACT-A
1 ATTATA-TTATA-TTTTAACTCA
1304373 ATTTATAATTATA
1 A-TTAT-ATTATA
1304386 CGTTTAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 16 0.53
24 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATATTATATTTTAACTCA
Found at i:1313453 original size:21 final size:20
Alignment explanation
Indices: 1313428--1313466 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1313418 ATGGTCTTTA
*
1313428 TTGAGCTGCTTAAGGCTTTCT
1 TTGAGATGCTTAA-GCTTTCT
*
1313449 TTGAGATGTTTAAGCTTT
1 TTGAGATGCTTAAGCTTT
1313467 AAGAATAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (20 bp):
TTGAGATGCTTAAGCTTTCT
Found at i:1319765 original size:264 final size:264
Alignment explanation
Indices: 1319435--1319962 Score: 1047
Period size: 264 Copynumber: 2.0 Consensus size: 264
1319425 TCAGCGTGGG
1319435 GTGGAGTGGAAAGATCCCTGAATCTAAGATCAATGATTCAATCGGACTGTTGACGCTTAAAATCA
1 GTGGAGTGGAAAGATCCCTGAATCTAAGATCAATGATTCAATCGGACTGTTGACGCTTAAAATCA
1319500 TGGCATCACCTGTCTCCTCTGTCATGTTGGCTTCTTGTGCACCGATATATTTCTTCAGTACTCTG
66 TGGCATCACCTGTCTCCTCTGTCATGTTGGCTTCTTGTGCACCGATATATTTCTTCAGTACTCTG
1319565 TAATCTCTTTTAAAGTGACCCTTCTTGGCATAATTATAACATGTAAAATCTTTCTTTCCCGTTCT
131 TAATCTCTTTTAAAGTGACCCTTCTTGGCATAATTATAACATGTAAAATCTTTCTTTCCCGTTCT
1319630 TTATTTTCCTCTTCTGGATTTGGATTTGCCACGATTTGAATTTCTCTCTAAAGTTCTCCCTCTGG
196 TTATTTTCCTCTTCTGGATTTGGATTTGCCACGATTTGAATTTCTCTCTAAAGTTCTCCCTCTGG
1319695 ACTC
261 ACTC
*
1319699 GTGGAGTGGAAAGATCCCTGAATCTAAGATCCATGATTCAATCGGACTGTTGACGCTTAAAATCA
1 GTGGAGTGGAAAGATCCCTGAATCTAAGATCAATGATTCAATCGGACTGTTGACGCTTAAAATCA
1319764 TGGCATCACCTGTCTCCTCTGTCATGTTGGCTTCTTGTGCACCGATATATTTCTTCAGTACTCTG
66 TGGCATCACCTGTCTCCTCTGTCATGTTGGCTTCTTGTGCACCGATATATTTCTTCAGTACTCTG
1319829 TAATCTCTTTTAAAGTGACCCTTCTTGGCATAATTATAACATGTAAAATCTTTCTTTCCCGTTCT
131 TAATCTCTTTTAAAGTGACCCTTCTTGGCATAATTATAACATGTAAAATCTTTCTTTCCCGTTCT
1319894 TTATTTTCCTCTTCTGGATTTGGATTTGCCACGATTTGAATTTCTCTCTAAAGTTCTCCCTCTGG
196 TTATTTTCCTCTTCTGGATTTGGATTTGCCACGATTTGAATTTCTCTCTAAAGTTCTCCCTCTGG
1319959 ACTC
261 ACTC
1319963 CGTGTGCAAG
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 263 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (264 bp):
GTGGAGTGGAAAGATCCCTGAATCTAAGATCAATGATTCAATCGGACTGTTGACGCTTAAAATCA
TGGCATCACCTGTCTCCTCTGTCATGTTGGCTTCTTGTGCACCGATATATTTCTTCAGTACTCTG
TAATCTCTTTTAAAGTGACCCTTCTTGGCATAATTATAACATGTAAAATCTTTCTTTCCCGTTCT
TTATTTTCCTCTTCTGGATTTGGATTTGCCACGATTTGAATTTCTCTCTAAAGTTCTCCCTCTGG
ACTC
Found at i:1322043 original size:64 final size:64
Alignment explanation
Indices: 1321969--1322089 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
1321959 GCACAGGTAG
** * *
1321969 TGCATCGATGCACTCTTTTAA-AATAAAAATATCGAATGCA-ATTAGTGCATCGATGCATAAGGC
1 TGCATCGATGCACTCCATTAATAAT-AAAACATCGAATGCATATTA-TGCACCGATGCATAAGGC
1322032 A
64 A
* * *
1322033 TGCATGGATGCATTCCATTAATAATAAAACATCGAATGCATTTTATGCACCGATGCA
1 TGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGCACCGATGCA
1322090 CAAATAGTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
64 42 0.88
65 6 0.12
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCACTCCATTAATAATAAAACATCGAATGCATATTATGCACCGATGCATAAGGCA
Found at i:1328098 original size:47 final size:47
Alignment explanation
Indices: 1328029--1328122 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
1328019 GGGGGAGAGT
1328029 TGTAACATCCTCAATACCGGGTTAGTGACTAAATTGTAAAGTCTCAG
1 TGTAACATCCTCAATACCGGGTTAGTGACTAAATTGTAAAGTCTCAG
*
1328076 TGTAACATCCTCAATACCGGGTTAGTGACTAAATTGTACAGTCTCAG
1 TGTAACATCCTCAATACCGGGTTAGTGACTAAATTGTAAAGTCTCAG
1328123 AATTTGGTGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTAACATCCTCAATACCGGGTTAGTGACTAAATTGTAAAGTCTCAG
Found at i:1328938 original size:64 final size:64
Alignment explanation
Indices: 1328870--1329026 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
1328860 TTGAAGGTGT
* ** * *
1328870 ATCGATGCATAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATTCA-ATTAGT
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
1328932 GC
63 GC
* *
1328934 ATCGATGCATAAAGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCAT-AAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
1328998 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
1329027 ACCTTCATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 4 0.05
64 64 0.82
65 10 0.13
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:1329442 original size:29 final size:29
Alignment explanation
Indices: 1329403--1329512 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1329393 TATGTGATAT
1329403 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
1329433 GAGAAATGACATGAGTTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
* *
1329462 GAGAAATGACATTAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
1329491 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1329513 ACATATAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 7 0.09
29 62 0.84
30 5 0.07
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.19
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1335856 original size:64 final size:65
Alignment explanation
Indices: 1335744--1335898 Score: 149
Period size: 64 Copynumber: 2.4 Consensus size: 65
1335734 GAAGGTGTAT
* * * ** * *
1335744 CGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAAAATAAAAAGATCGAATTCA-ATTAGTGCA
1 CGATGCACAAGCATTGCATCGATGCATCTCCATTAAAATAAAAACATCGAATACATATTA-TGCA
*
1335807 T
65 C
* *
1335808 CGATGCATAAGGCA-TGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATACATTTTATGC
1 CGATGCACAA-GCATTGCATCGATGCATCTCCATTAA-AATAAAAACATCGAATACATATTATGC
1335870 AC
64 AC
*
1335872 CGATGCACAAGTATTGCATCGATGCAT
1 CGATGCACAAGCATTGCATCGATGCAT
1335899 ACCTTCATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
63 2 0.03
64 64 0.85
65 9 0.12
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (65 bp):
CGATGCACAAGCATTGCATCGATGCATCTCCATTAAAATAAAAACATCGAATACATATTATGCAC
Found at i:1337182 original size:14 final size:14
Alignment explanation
Indices: 1337163--1337192 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1337153 TCCACCTTAG
1337163 TTTAACACAAACAC
1 TTTAACACAAACAC
*
1337177 TTTAACACTAACAC
1 TTTAACACAAACAC
1337191 TT
1 TT
1337193 CTCCCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
TTTAACACAAACAC
Found at i:1339526 original size:20 final size:21
Alignment explanation
Indices: 1339480--1339539 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
1339470 TATCCCTGTG
1339480 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1339503 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1339523 GGGGGGATCGATTCCCT
1 GGGGGAATCGGTTCCCT
1339540 TTGTATCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1345554 original size:29 final size:29
Alignment explanation
Indices: 1345515--1345624 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1345505 TATGTAATAT
1345515 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
1345545 GAGAAATGACATGAGCTACATGATCATAA
1 GAGAAATGACATGAGCTACATGATCACAA
* *
1345574 GAGAAATGAAATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
1345603 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1345625 ACATATAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 7 0.09
29 62 0.84
30 5 0.07
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1347195 original size:64 final size:64
Alignment explanation
Indices: 1347126--1347281 Score: 156
Period size: 64 Copynumber: 2.4 Consensus size: 64
1347116 TTGAAGGTGT
** * * *
1347126 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGTG
1 ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAAT-AAAACATCGAATACATATTA-TA
1347189 C
64 C
* * * * *
1347190 ATCGATGCATAAGGCA-TGTATCGATGCATTCCATTAATAATAAAACATCGAATACATTTTATAC
1 ATCGATGCA-CAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATACATATTATAC
* *
1347254 ACCGATGCACAAGTAGTGCATCGATGCA
1 ATCGATGCACAGGTAGTGCATCGATGCA
1347282 TACCTTCATT
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
63 3 0.04
64 60 0.82
65 10 0.14
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCACTCCATTAATAATAAAACATCGAATACATATTATAC
Found at i:1347698 original size:29 final size:29
Alignment explanation
Indices: 1347659--1347768 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
1347649 TATGTAATAT
1347659 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
1347689 GAGAAATGACATGAGCTACATGATCATAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1347718 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
1347747 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1347769 ACATATAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1350036 original size:23 final size:23
Alignment explanation
Indices: 1350001--1350071 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
1349991 ATTAAGTACA
* *
1350001 ATAATATATTAGGTAGCGCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
*
1350024 ATAATGTAATAGGTAGCTCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
1350047 ATAATGTAATAGGTAGCGCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
1350070 AT
1 AT
1350072 TAACATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATAATGTAATAGGTAGCGCTTAT
Found at i:1350900 original size:20 final size:20
Alignment explanation
Indices: 1350872--1350926 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1350862 GGTAGCTCTT
*
1350872 TACCAGTTTTGTCATTTCGA
1 TACCGGTTTTGTCATTTCGA
*
1350892 TACCGGTTTTATCATTTCGA
1 TACCGGTTTTGTCATTTCGA
*
1350912 GACCGGTTTTGTCAT
1 TACCGGTTTTGTCAT
1350927 ATTTGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (20 bp):
TACCGGTTTTGTCATTTCGA
Found at i:1351037 original size:202 final size:202
Alignment explanation
Indices: 1350690--1351090 Score: 604
Period size: 202 Copynumber: 2.0 Consensus size: 202
1350680 ACTTTTTTAC
* * * *
1350690 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGA
1 TACCGGTTTTATCATTTCGAGACCGATTTTGTCATATTTGTACATGTTATATTGTTATAGATCAA
* * *
1350755 TACATTTTTATAAAGCATCGACACTTTATTAGTGTTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGCATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* * * *
1350820 TGGCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCAGTTTTGTC
131 TGGCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCAGTTTTGTC
1350885 ATTTCGA
196 ATTTCGA
* * * *
1350892 TACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATTTGTATATGTTATATTGTTATGGATTAA
1 TACCGGTTTTATCATTTCGAGACCGATTTTGTCATATTTGTACATGTTATATTGTTATAGATCAA
* * *
1350957 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAATTTCTTCTCTTTTAAATTTCAAAAG
66 TACATTTTTATAAAGCATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* * * *
1351022 TGTCAATATTTATAATAAAGTATCGACACTATCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
131 TGGCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCAGTTTTGTC
1351087 ATTT
196 ATTT
1351091 ATAAAACGGT
Statistics
Matches: 177, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
202 177 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (202 bp):
TACCGGTTTTATCATTTCGAGACCGATTTTGTCATATTTGTACATGTTATATTGTTATAGATCAA
TACATTTTTATAAAGCATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGGCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCAGTTTTGTC
ATTTCGA
Found at i:1351279 original size:112 final size:112
Alignment explanation
Indices: 1351027--1351610 Score: 945
Period size: 112 Copynumber: 5.2 Consensus size: 112
1351017 AAAAGTGTCA
* *
1351027 ATATTTATAATAAAGTATCGACACTATCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTA
1 ATATTT-TTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTA
* * * *
1351092 TAAAACGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATAGATTAAT
65 TAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAAT
* *
1351139 ATATTTTTATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
* *
1351204 AGACCGGTTTTGTCATTCTTTTACCTGTTATATTGTTATGGATCGAT
66 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAAT
* * *
1351251 ACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACATGTTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
*
1351316 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGAT
66 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAAT
* * *
1351363 ATATTTTTATAAAGTATCAACACTTTTAATATATCCGGTAGTGCTTTACCTGTTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
* *
1351428 AGACCAGTTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAAT
66 AGACCGGTTTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCAAT
*
1351476 ATATTTTTATAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
* *
1351541 AGACCGGTTTTGTCATTTTTTTATCTGTTATATTATTATGGATCAAT
66 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAAT
1351588 ATATTTTTATAAAGTATCGACAC
1 ATATTTTTATAAAGTATCGACAC
1351611 AAACCGACAA
Statistics
Matches: 437, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
111 68 0.16
112 264 0.60
113 105 0.24
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (112 bp):
ATATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAAT
Found at i:1351571 original size:225 final size:223
Alignment explanation
Indices: 1351027--1351610 Score: 936
Period size: 225 Copynumber: 2.6 Consensus size: 223
1351017 AAAAGTGTCA
*
1351027 ATATTTATAATAAAGTATCGACACTATCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTA
1 ATATTT-TTATAAAGTATCGACACT-TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTA
* * * *
1351092 TAAAACGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATAGATTAATATATTTTTATAAAGTAT
64 TAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTAT
*
1351156 CGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGGTTTTGTCATT
129 CGACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATT
*
1351221 CTTTTACCTGTTATATTGTTATGGATCGAT
194 CTTTTACCTGTTATATTGTTATGGATCAAT
* * *
1351251 ACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACATGTTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACAC-TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
*
1351316 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATC
65 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATC
* * * * *
1351381 AACACTTTTAATATATCCGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTT
130 GACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCA-TT
* *
1351446 TTTTTACTTGTTATATTGTTATGGATCAAT
194 CTTTTACCTGTTATATTGTTATGGATCAAT
1351476 ATATTTTTATAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
1 ATATTTTTATAAAGTATCGACACTT-CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
* *
1351541 AGACCGGTTTTGTCATTTTTTTATCTGTTATATTATTATGGATCAATATATTTTTATAAAGTATC
65 AGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATC
1351606 GACAC
130 GACAC
1351611 AAACCGACAA
Statistics
Matches: 331, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
223 67 0.20
224 110 0.33
225 154 0.47
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (223 bp):
ATATTTTTATAAAGTATCGACACTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATA
GACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCG
ACACTTTCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATTCT
TTTACCTGTTATATTGTTATGGATCAAT
Found at i:1356025 original size:36 final size:36
Alignment explanation
Indices: 1355978--1356053 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
1355968 TACTTTCTTT
1355978 TAATAATATATATTGCAATACATAAACTTAATTATC
1 TAATAATATATATTGCAATACATAAACTTAATTATC
* *
1356014 TAATAATATATATTGCATTACTTAAACTTAATTATC
1 TAATAATATATATTGCAATACATAAACTTAATTATC
1356050 TAAT
1 TAAT
1356054 CGAACATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (36 bp):
TAATAATATATATTGCAATACATAAACTTAATTATC
Found at i:1360188 original size:2 final size:2
Alignment explanation
Indices: 1360181--1360239 Score: 109
Period size: 2 Copynumber: 29.0 Consensus size: 2
1360171 ATTCTGAGAA
1360181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1360223 AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT -AT AT
1360240 GTAGGACAGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1365404 original size:13 final size:13
Alignment explanation
Indices: 1365386--1365413 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1365376 ACATTCATTG
1365386 TAATTATTATTAT
1 TAATTATTATTAT
1365399 TAATTATTATTAT
1 TAATTATTATTAT
1365412 TA
1 TA
1365414 TTTTGCATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATTATTATTAT
Found at i:1369414 original size:21 final size:21
Alignment explanation
Indices: 1369372--1369416 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1369362 ATGATACATT
*
1369372 TTTCTCTATCTTTATGAAACG
1 TTTCTCTACCTTTATGAAACG
*
1369393 TTTCATCTACCTTT-TGACACG
1 TTTC-TCTACCTTTATGAAACG
1369414 TTT
1 TTT
1369417 TCAATCGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTCTCTACCTTTATGAAACG
Found at i:1369418 original size:22 final size:23
Alignment explanation
Indices: 1369371--1369419 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
1369361 TATGATACAT
*
1369371 TTTTC-TCTATCTTTATGAAACG
1 TTTTCATCTACCTTTATGAAACG
*
1369393 -TTTCATCTACCTTT-TGACACG
1 TTTTCATCTACCTTTATGAAACG
1369414 TTTTCA
1 TTTTCA
1369420 ATCGTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTCATCTACCTTTATGAAACG
Found at i:1371487 original size:42 final size:42
Alignment explanation
Indices: 1371435--1371516 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
1371425 TTTTAAATTT
* *
1371435 CGTGTTTGTTTCATATAATTTGTTTTTTGAAAAATATTTTAC
1 CGTGTTTGTTTCACATAATTTGTTTTTCGAAAAATATTTTAC
*
1371477 CGTGTTTGTTTCACGTAATTTGTTTTTCGAAAAATATTTT
1 CGTGTTTGTTTCACATAATTTGTTTTTCGAAAAATATTTT
1371517 TCAGTATTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (42 bp):
CGTGTTTGTTTCACATAATTTGTTTTTCGAAAAATATTTTAC
Found at i:1371787 original size:20 final size:21
Alignment explanation
Indices: 1371735--1371787 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 21
1371725 TTAATTATAA
1371735 AATATTA-AAATATATTTATT
1 AATATTATAAATATATTTATT
*
1371755 AATTTAATAATAAATATATTT-TT
1 AA--T-ATTATAAATATATTTATT
1371778 AATATTATAA
1 AATATTATAA
1371788 TAAAATAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 1 0.04
23 7 0.26
24 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTATAAATATATTTATT
Found at i:1371788 original size:26 final size:24
Alignment explanation
Indices: 1371742--1371901 Score: 80
Period size: 24 Copynumber: 6.3 Consensus size: 24
1371732 TAAAATATTA
1371742 AAATATATTTATTAATTTAATAAT
1 AAATATATTTATTAATTTAATAAT
1371766 AAATATATTT-TTAATATT-ATAAT
1 AAATATATTTATTAAT-TTAATAAT
**
1371789 AAA-ATAATCAATTATATTATAATAATAT
1 AAATAT-ATTTATTA-ATT-TAAT-A-AT
* * *
1371817 AAGATATTATATTTTTATTTTAAAATAT
1 AA-ATA-TAT-TTATTAATTTAATA-AT
*
1371845 ATAATAAATTT-TATATATTTAATAAT
1 A-AATATATTTAT-TA-ATTTAATAAT
*
1371871 TAATA-ATTTATTATATATTAAT-AT
1 AAATATATTTATTA-AT-TTAATAAT
1371895 AAATATA
1 AAATATA
1371902 ATCTAATAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
22 2 0.02
23 15 0.14
24 31 0.29
25 15 0.14
26 8 0.08
27 9 0.08
28 12 0.11
29 5 0.05
30 5 0.05
31 4 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AAATATATTTATTAATTTAATAAT
Found at i:1371812 original size:31 final size:31
Alignment explanation
Indices: 1371760--1371818 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1371750 TTATTAATTT
* *
1371760 AATAATAAATATATTTTTAATATTATAATAA
1 AATAATAAATATATTTATAATAATATAATAA
*
1371791 AATAATCAAT-TATATTATAATAATATAA
1 AATAATAAATATAT-TTATAATAATATAA
1371819 GATATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
AATAATAAATATATTTATAATAATATAATAA
Found at i:1371902 original size:26 final size:25
Alignment explanation
Indices: 1371742--1371903 Score: 76
Period size: 26 Copynumber: 6.4 Consensus size: 25
1371732 TAAAATATTA
1371742 AAATAT-ATTTATTA-AT-TTAATAAT
1 AAATATAATTT-TTATATATTAAT-AT
1371766 AAATAT-ATTTTTA-ATATT-ATAAT
1 AAATATAATTTTTATATATTAAT-AT
1371789 AAAATAATCAATTATATTATA-A-TAATAT
1 -AAAT-AT-AATT-T-TTATATATTAATAT
*
1371817 AAGATATTATATTTTTAT-T-TTAAAAT
1 AA-ATA-TA-ATTTTTATATATTAATAT
* * *
1371843 ATATAATAAATTTTATATATTTA-AT
1 AAAT-ATAATTTTTATATATTAATAT
*
1371868 AATTAATAATTTATTATATATTAATAT
1 AAAT-ATAATTT-TTATATATTAATAT
1371895 AAATATAAT
1 AAATATAAT
1371904 CTAATAATAT
Statistics
Matches: 110, Mismatches: 9, Indels: 36
0.71 0.06 0.23
Matches are distributed among these distances:
23 10 0.09
24 23 0.21
25 18 0.16
26 29 0.26
27 13 0.12
28 10 0.09
29 6 0.05
30 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AAATATAATTTTTATATATTAATAT
Found at i:1372322 original size:15 final size:15
Alignment explanation
Indices: 1372302--1372338 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1372292 TCATTTTCCA
1372302 TAATTCAAATTCTAG
1 TAATTCAAATTCTAG
1372317 TAATTCAAATTCTAG
1 TAATTCAAATTCTAG
1372332 TAATTCA
1 TAATTCA
1372339 TTTTTCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (15 bp):
TAATTCAAATTCTAG
Found at i:1373595 original size:60 final size:61
Alignment explanation
Indices: 1373522--1373636 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 61
1373512 ACAAGTTTAG
* **
1373522 AACATATGAATAGTCGGGTGAGCATTTTGTAACTTTTAATAATTAAAAAACTTAACAAAAT
1 AACATATGAATAGTCCGAAGAGCATTTTGTAACTTTTAATAATTAAAAAACTTAACAAAAT
* * * * *
1373583 AACATAT-TATAGTCCTAAGATCATTTTGTAACTTTTAATAATTAAGAAATTTAA
1 AACATATGAATAGTCCGAAGAGCATTTTGTAACTTTTAATAATTAAAAAACTTAA
1373637 TAATAGTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
60 39 0.85
61 7 0.15
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (61 bp):
AACATATGAATAGTCCGAAGAGCATTTTGTAACTTTTAATAATTAAAAAACTTAACAAAAT
Found at i:1377294 original size:8 final size:8
Alignment explanation
Indices: 1377283--1377315 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
1377273 AGCCGACAAG
1377283 GCTAGAAA
1 GCTAGAAA
*
1377291 GCTAGCAA
1 GCTAGAAA
1377299 GCTAGAAA
1 GCTAGAAA
1377307 GCTAGAAA
1 GCTAGAAA
1377315 G
1 G
1377316 AATGAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.12
Consensus pattern (8 bp):
GCTAGAAA
Found at i:1382687 original size:212 final size:212
Alignment explanation
Indices: 1382313--1382737 Score: 814
Period size: 212 Copynumber: 2.0 Consensus size: 212
1382303 CTAGTCACAA
1382313 TGAAAAGACAAACTCGATAAATGGCTCTAACCAACCCTCCTAGTCGCGATGAAAAGACAAATTGG
1 TGAAAAGACAAACTCGATAAATGGCTCTAACCAACCCTCCTAGTCGCGATGAAAAGACAAATTGG
1382378 AGTGTGAAGATTAATCTCCCTCACAAGAACTTGAAAGAACTCCAGAAGAAGAAGCTTCGAAGGCA
66 AGTGTGAAGATTAATCTCCCTCACAAGAACTTGAAAGAACTCCAGAAGAAGAAGCTTCGAAGGCA
* *
1382443 CAAGGCAATCAGCACTTGCAAAAACGAACTCTCGTTGTATTATTAATCAAAGAAATCTTGAATTA
131 CAAGGCAATCAGCACTTGCAAAAACAAACTCTCGTTGTATTATTAATCAAAGAAATATTGAATTA
1382508 CAAAGTTTAATGAAGCC
196 CAAAGTTTAATGAAGCC
*
1382525 TGAAAAGGCAAACTCGATAAATGGCTCTAACCAACCCTCCTAGTCGCGATGAAAAGACAAATTGG
1 TGAAAAGACAAACTCGATAAATGGCTCTAACCAACCCTCCTAGTCGCGATGAAAAGACAAATTGG
*
1382590 AGTGTGAAGATTAATCTCCCTCACAAGAACTTGAAAGAACTCCAGGAGAAGAAGCTTCGAAGGCA
66 AGTGTGAAGATTAATCTCCCTCACAAGAACTTGAAAGAACTCCAGAAGAAGAAGCTTCGAAGGCA
1382655 CAAGGCAATCAGCACTTGCAAAAACAAACTCTCGTTGTATTATTAATCAAAGAAATATTGAATTA
131 CAAGGCAATCAGCACTTGCAAAAACAAACTCTCGTTGTATTATTAATCAAAGAAATATTGAATTA
1382720 CAAAGTTTAATGAAGCC
196 CAAAGTTTAATGAAGCC
1382737 T
1 T
1382738 CCTTTATATA
Statistics
Matches: 209, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 209 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (212 bp):
TGAAAAGACAAACTCGATAAATGGCTCTAACCAACCCTCCTAGTCGCGATGAAAAGACAAATTGG
AGTGTGAAGATTAATCTCCCTCACAAGAACTTGAAAGAACTCCAGAAGAAGAAGCTTCGAAGGCA
CAAGGCAATCAGCACTTGCAAAAACAAACTCTCGTTGTATTATTAATCAAAGAAATATTGAATTA
CAAAGTTTAATGAAGCC
Found at i:1389150 original size:43 final size:43
Alignment explanation
Indices: 1389057--1389175 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
1389047 TGAGACATCT
* * * * *
1389057 ATTTTTTTAAATCTTATTTTTTACCTTTATAATTGAGGCTCTTG
1 ATTTTTTT-AATCTCACTTTTTACCTTAATAATTAAGGCTCTTA
* *
1389101 ACTTTTTTAATCTCACTTTCTACCTTAATAATTAAGGC-CTCTA
1 ATTTTTTTAATCTCACTTTTTACCTTAATAATTAAGGCTCT-TA
* * *
1389144 ATTTTTTCAATCCCACTTTTTACCTTCATAAT
1 ATTTTTTTAATCTCACTTTTTACCTTAATAAT
1389176 CGAGTTCCCT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 53 0.85
44 7 0.11
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.50
Consensus pattern (43 bp):
ATTTTTTTAATCTCACTTTTTACCTTAATAATTAAGGCTCTTA
Found at i:1392519 original size:21 final size:21
Alignment explanation
Indices: 1392494--1392541 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
1392484 CCCAACGATT
1392494 ATGATTCCCCCAATCAATTCC
1 ATGATTCCCCCAATCAATTCC
1392515 ATGATT-CCCCAATCAATTCC
1 ATGATTCCCCCAATCAATTCC
1392535 ATGATTC
1 ATGATTC
1392542 TTAACAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.31
Consensus pattern (21 bp):
ATGATTCCCCCAATCAATTCC
Found at i:1395411 original size:2 final size:2
Alignment explanation
Indices: 1395404--1395431 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1395394 TATTACACGA
1395404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1395432 GAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1401869 original size:20 final size:20
Alignment explanation
Indices: 1401828--1401869 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1401818 CATTATGTGA
* *
1401828 TTGTATTTTTTTATTAATAT
1 TTGTATTTATTTAATAATAT
1401848 TTGTATTTAATTTAATAA-AT
1 TTGTATTT-ATTTAATAATAT
1401868 TT
1 TT
1401870 TTCATCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTGTATTTATTTAATAATAT
Found at i:1417826 original size:23 final size:22
Alignment explanation
Indices: 1417795--1417838 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1417785 TACAATATAA
*
1417795 TAATAATTTTTTGATGAATTTAG
1 TAATAATTTTATGAT-AATTTAG
*
1417818 TAATTATTTTATGATAATTTA
1 TAATAATTTTATGATAATTTA
1417839 ATTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
TAATAATTTTATGATAATTTAG
Found at i:1417892 original size:32 final size:33
Alignment explanation
Indices: 1417811--1417918 Score: 116
Period size: 32 Copynumber: 3.4 Consensus size: 33
1417801 TTTTTTGATG
* *
1417811 AATTTAGTAATTA-TTTTATGATAATTTAATTA
1 AATTTAATAATTATTTTTATAATAATTTAATTA
*
1417843 AATTTATTAATTATTTTTATAATAATTTAA-TA
1 AATTTAATAATTATTTTTATAATAATTTAATTA
* **
1417875 GATTTAATAATTATTTTTA-AATTTTTATAATTA
1 AATTTAATAATTATTTTTATAATAATT-TAATTA
*
1417908 AA-ATAATAATT
1 AATTTAATAATT
1417919 TAAATTAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 5 0.08
32 42 0.65
33 18 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (33 bp):
AATTTAATAATTATTTTTATAATAATTTAATTA
Found at i:1418168 original size:30 final size:30
Alignment explanation
Indices: 1418116--1418174 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
1418106 AAATTATATG
1418116 TTTAGTACCTAAACTATTATTTTTGTTTCAT
1 TTTAGTACCTAAACTATTATTTTT-TTTCAT
*
1418147 TTTAGTATCTAAACT-TTATTTTTTTTCA
1 TTTAGTACCTAAACTATTATTTTTTTTCA
1418175 AATTTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 8 0.30
31 14 0.52
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTAGTACCTAAACTATTATTTTTTTTCAT
Found at i:1419604 original size:111 final size:109
Alignment explanation
Indices: 1419268--1419610 Score: 479
Period size: 111 Copynumber: 3.1 Consensus size: 109
1419258 CGTATATTAG
* * * * *
1419268 TCGATACTTTCAACATATTAGGTAAATTTTACTGGTTTTGTCATAATGAAACTGATTTTGTCATA
1 TCGATACTTTCAACATATCAGGTAAATTTTAC-CGTTTTTTCATAATGAAACTGGTTTTATCATA
* * *
1419333 TTTATATCTGTTATATTGTAAAGTATCGATCATTTTTATAAAATGA
65 TTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAGT-A
* *
1419379 TAGACACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATA
1 TCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTT-TCATAATGAAACTGGTTTTATCATA
* ** * *
1419444 TTTTTACATGTTATATTGTAAAGTATTAATCCTTTTTATAAAAGGA
65 TTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTAT-AAAGTA
*
1419490 TCGATACTTTCAACATATCAGGTAAATTTTACCATTTTTTCCATAATGAAACTGGTTTTATCATA
1 TCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTT-CATAATGAAACTGGTTTTATCATA
*
1419555 TTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGTA
65 TTTTTACCTGTTATATTGTAAAGTATCGAT-CATTTTTATAAAGTA
1419601 TCGATACTTT
1 TCGATACTTT
1419611 ATAGGCGCTA
Statistics
Matches: 204, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
110 6 0.03
111 187 0.92
112 11 0.05
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (109 bp):
TCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTTCATAATGAAACTGGTTTTATCATAT
TTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAGTA
Found at i:1420222 original size:111 final size:111
Alignment explanation
Indices: 1420042--1420391 Score: 565
Period size: 111 Copynumber: 3.1 Consensus size: 111
1420032 AACTTTCAAA
** ** * *
1420042 AAAGTATCGATACTTTTTATAAAAAATATATATACTTTCAACATATTAGGTAAATTTTACCGGTT
1 AAAGTATCGATACTTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
*
1420107 TTGTCATAATGAAACTGGTTTTGTCATATTTATACATGTTATATTGT
65 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
*
1420154 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCGATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
*
1420219 TGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
*
1420265 AAAGTATCGATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCCTTTT
1 AAAGTATCGATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* * *
1420330 TGTCATAATAAAACCGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
*
1420376 AAAATATCGATACTTT
1 AAAGTATCGATACTTT
1420392 ATAGGCGCTA
Statistics
Matches: 222, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
111 203 0.91
112 19 0.09
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (111 bp):
AAAGTATCGATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
TGTCATAATGAAACTGGTTTTGTCATATTTTTACATGTTATATTGT
Found at i:1420913 original size:802 final size:781
Alignment explanation
Indices: 1419271--1421163 Score: 2951
Period size: 781 Copynumber: 2.4 Consensus size: 781
1419261 ATATTAGTCG
* *
1419271 ATACTTTCAACATATTAGGTAAATTTTAC-TGGTTTTGTCATAATGAAACTGATTTTGTCATATT
1 ATACTTTCAACATATCAGGTAAATTTTACACGGTTTTGTCATAATGAAACTG-TTTTGTCATATT
* * *
1419335 TATATC-TGTTATATTGTAAAGTATCGATCATTTTTATAAAATGATAGACACTTTCAACATATCA
65 TATA-CATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGATAGATACTTTCAACATATCA
1419399 GGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGTA
129 GGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGTA
* *
1419464 AAGTATTAATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTTT
194 AAGTATCAATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTTT
*
1419529 -TCCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTT
259 GT-CATAATGAAACTGGTTTTGTCATATTTTTACCTG-T-TA---T---AT-T-G---------T
1419593 ATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTATCGATAC
304 A-AAA-TATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTATCGATAC
* *
1419658 TTATTTAAATGGAATCGATAGTTTCAACATATCCGATAGGTAGTTTAATGTAATAGGTATGCATT
367 TTATTTAAATGGAATCGATACTTTCAACATATCCGATAGGTAGTTTAATGTAATAGATATGCATT
* *
1419723 TCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAAT
432 TCACTGTAAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAAT
* **
1419788 TATACGCGTCTAATGATTTATTTTTTATGTTATGGTATATATTATTATTAAATTAAAAACAATAA
497 TATACACGTCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAACAATAA
*
1419853 TCATAGATATTACATATTTATTATTATCTTTGGTTAAAATTATTAAATTTAAATTCTAAATAATA
562 ACATAGATATTACATATTTATTATTATCTTTGGTTAAAATTATTAAATTTAAATTCTAAATAATA
*
1419918 TTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
627 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
* * *
1419983 AGGTGGAAACATGAAACACTATTAAAAATTTTTGAAACATAAATTACATAACTTTCAAAAAAGTA
692 AGGTGAAAACATAAAACAATATTAAAAATTTTTGAAACATAAATTACATAACTTTCAAAAAAGTA
*
1420048 TCGATACTTTTTATAAAAAATATAT
757 TAGATACTTTTTATAAAAAATATAT
*
1420073 ATACTTTCAACATATTAGGTAAATTTTAC-CGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1 ATACTTTCAACATATCAGGTAAATTTTACACGGTTTTGTCATAATGAAACT-GTTTTGTCATATT
* *
1420137 TATACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAG
65 TATACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGATAGATACTTTCAACATATCAG
1420202 GTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGTAA
130 GTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGTAA
* *
1420267 AGTATCGATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCCTTTTTG
195 AGTATCAATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTTTG
* *
1420332 TCATAATAAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACTTTATAGG
260 TCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACTTTATAGG
*
1420397 CGCTATTACTGTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTT
325 CGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTT
*
1420462 TCAACATATCCGATAGGTAGTTTAATGTAATAGATATGTATTTCACTGTAAAAAACATTAATTTA
390 TCAACATATCCGATAGGTAGTTTAATGTAATAGATATGCATTTCACTGTAAAAAACATTAATTTA
* * *
1420527 AGGTTATTTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATACATGTCTAATGATTTATTT
455 AGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTATTT
1420592 TTTATGTTACAGTATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTA
520 TTTATGTTACAGTATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTA
*
1420657 TTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC
585 TTATCTTTGGTTAAAATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC
*
1420722 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAACATAAAACAATATT
650 AAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGAAAACATAAAACAATATT
*
1420787 AAAAATTTTTGAAACATAAATTACATAACTTTCAAAAAAAGTATAGAT-CATTTTTATAAAATAT
715 AAAAATTTTTGAAACATAAATTACATAACTTTC-AAAAAAGTATAGATAC-TTTTTATAAAAAAT
*
1420851 ATTT
778 ATAT
* *
1420855 ATACTTTTAACATATCAGGTAAATTTT--ATGAGTTTTGTCATAATGAAACTGATTTTGTCATA-
1 ATACTTTCAACATATCAGGTAAATTTTACACG-GTTTTGTCATAATGAAACTG-TTTTGTCATAT
* ** * *
1420917 TT-TACATATTATATTGTAAAGTATATATCCTTTTTATAAAAAGATTGATACTTTCAACATATTA
64 TTATACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGATAGATACTTTCAACATATCA
* * * * *
1420981 CGTAAATTTCACCCTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTATC-TGTTATATTGT
129 GGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTA-CATGTTATATTGT
* * * * *
1421045 AAATTATCTATATTTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTT
193 AAAGTATCAATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
*
1421110 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAATATC
258 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATC
1421164 TATTTTTTTT
Statistics
Matches: 1026, Mismatches: 56, Indels: 40
0.91 0.05 0.04
Matches are distributed among these distances:
780 224 0.22
781 427 0.42
782 86 0.08
783 2 0.00
792 1 0.00
793 1 0.00
794 2 0.00
797 1 0.00
800 2 0.00
801 2 0.00
802 276 0.27
803 2 0.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (781 bp):
ATACTTTCAACATATCAGGTAAATTTTACACGGTTTTGTCATAATGAAACTGTTTTGTCATATTT
ATACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGATAGATACTTTCAACATATCAGG
TAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTATCATATTTTTACATGTTATATTGTAAA
GTATCAATACTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTTTGT
CATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACTTTATAGGC
GCTATTACTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTTT
CAACATATCCGATAGGTAGTTTAATGTAATAGATATGCATTTCACTGTAAAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTATTTT
TTATGTTACAGTATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTAT
TATCTTTGGTTAAAATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
AATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGAAAACATAAAACAATATTA
AAAATTTTTGAAACATAAATTACATAACTTTCAAAAAAGTATAGATACTTTTTATAAAAAATATA
T
Found at i:1421089 original size:111 final size:110
Alignment explanation
Indices: 1420855--1421411 Score: 699
Period size: 111 Copynumber: 5.0 Consensus size: 110
1420845 AAATATATTT
* * * *
1420855 ATACTTTTAACATATCAGGTAAATTTTA-TGAGTTTTGTCATAATGAAACTGATTTTGTCATA--
1 ATACTTTCAACATATCAGGTAAATTTTACCG-TTTTTGTCATAATGAAACTGGTTTTGTCATATT
* * * * * *
1420917 TTTACATATTATATTGTAAAGTATATATCCTTTTTATAAAAAGATTG
65 TTTAC-TGTTATATTGTAAAATATCTATACTTTTTATAAAAGGATCG
* * * * *
1420964 ATACTTTCAACATATTACGTAAATTTCACCCTTTTTGTCATAATAAAACTGGTTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
* *
1421029 TTATCTGTTATATTGTAAATTATCTATATTTTTTATAAAAGGATCG
66 TTA-CTGTTATATTGTAAAATATCTATACTTTTTATAAAAGGATCG
* *
1421075 ATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
** *
1421140 TTACCTGTTATATTGTAAAATATCTATTTTTTTTATAAAATGATCG
66 TTA-CTGTTATATTGTAAAATATCTATACTTTTTATAAAAGGATCG
* * *
1421186 ATACTTTCAACATATCATGTAAATTTTACCGTTTTTATCATAATAAAACTGGTTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
* * * * **
1421251 TCACCTGTTATATTGTAAAGTATCGATCCTTTTTATGAAAAGGATAT
66 TTA-CTGTTATATTGTAAAATATCTATACTTTTTAT-AAAAGGATCG
* *
1421298 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAATTGGTTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
* *
1421363 TTACTTGTTATATTGTAAAATATCGATACATTTTTAT-AAAGTATCG
66 TTAC-TGTTATATTGTAAAATATCTATAC-TTTTTATAAAAGGATCG
1421409 ATA
1 ATA
1421412 TTTTATAGGC
Statistics
Matches: 392, Mismatches: 49, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
109 52 0.13
111 241 0.61
112 92 0.23
113 7 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (110 bp):
ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTT
TTACTGTTATATTGTAAAATATCTATACTTTTTATAAAAGGATCG
Found at i:1421239 original size:222 final size:223
Alignment explanation
Indices: 1420855--1421402 Score: 780
Period size: 222 Copynumber: 2.5 Consensus size: 223
1420845 AAATATATTT
* *
1420855 ATACTTTTAACATATCAGGTAAATTTTA-TGAGTTTTGTCATAATGAAACTGATTTTGTCATA--
1 ATACTTTCAACATATCAGGTAAATTTTACCG-GTTTTGTCATAATGAAACTGATTTTGTCATATT
* * * * *
1420917 TTTACATATTATATTGTAAAGTATATATCCTTTTTATAAAAAGATTGATACTTTCAACATATTAC
65 TTTACATGTTATATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCAC
* * *
1420982 GTAAATTTCACCCTTTTTGTCATAATAAAACTGGTTTTGTCATATTTTTATCTGTTATATTGTAA
130 GTAAATTTCACCCTTTTTATCATAATAAAACTGGTTTTGTCATATTTTCACCTGTTATATTGTAA
* * * *
1421047 ATTATCTATATTTTTTAT-AAAAGGATCG
195 AGTATCGATACTTTTTATGAAAAGGATAG
* *
1421075 ATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTT
* ** * *
1421140 TTACCTGTTATATTGTAAAATATCTATTTTTTTTATAAAATGATCGATACTTTCAACATATCATG
66 TTACATGTTATATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCACG
* *
1421205 TAAATTTTACCGTTTTTATCATAATAAAACTGGTTTTGTCATATTTTCACCTGTTATATTGTAAA
131 TAAATTTCACCCTTTTTATCATAATAAAACTGGTTTTGTCATATTTTCACCTGTTATATTGTAAA
* *
1421270 GTATCGATCCTTTTTATGAAAAGGATAT
196 GTATCGATACTTTTTATGAAAAGGATAG
* *
1421298 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAATTGGTTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTT
* * *
1421363 TTACTTGTTATATTGTAAAATATCGATACATTTTTATAAA
66 TTACATGTTATATTGTAAAATATCTAT-CCTTTTTATAAA
1421403 GTATCGATAT
Statistics
Matches: 290, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
220 56 0.19
221 1 0.00
222 129 0.44
223 94 0.32
224 10 0.03
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (223 bp):
ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTT
TTACATGTTATATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCACG
TAAATTTCACCCTTTTTATCATAATAAAACTGGTTTTGTCATATTTTCACCTGTTATATTGTAAA
GTATCGATACTTTTTATGAAAAGGATAG
Found at i:1423402 original size:26 final size:26
Alignment explanation
Indices: 1423366--1423417 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1423356 CATTGGTAAC
1423366 ATTTTAGGTGTTTACCAAATATGTTG
1 ATTTTAGGTGTTTACCAAATATGTTG
1423392 ATTTTAGGTGTTTACCAAATATGTTG
1 ATTTTAGGTGTTTACCAAATATGTTG
1423418 TAATAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (26 bp):
ATTTTAGGTGTTTACCAAATATGTTG
Found at i:1423571 original size:87 final size:87
Alignment explanation
Indices: 1423479--1423677 Score: 290
Period size: 87 Copynumber: 2.3 Consensus size: 87
1423469 ACAGCGTTAT
* * * * *** *
1423479 CTAATATGTTGTTATGTTTTATAATATTTTCAGTAATTAATTTATTTTATTATATAAGTGTTATC
1 CTAATATGTTATTGTGTTTGATAATATTTTCAGTAATTAATCTATTTTATTATATAAGCACTACC
* *
1423544 TATTACATTATATAAGCGGTAC
66 TATTACATTATATAAACAGTAC
* *
1423566 TTAATATGTTATTGTGCTTGATAATATTTTCAGTAATTAATCTATTTTATTATATAAGCACTACC
1 CTAATATGTTATTGTGTTTGATAATATTTTCAGTAATTAATCTATTTTATTATATAAGCACTACC
1423631 TATTACATTATATAAACAGTAC
66 TATTACATTATATAAACAGTAC
1423653 CTAATATGTTATTGTGTTTGATAAT
1 CTAATATGTTATTGTGTTTGATAAT
1423678 GTTTCCGGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 98 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (87 bp):
CTAATATGTTATTGTGTTTGATAATATTTTCAGTAATTAATCTATTTTATTATATAAGCACTACC
TATTACATTATATAAACAGTAC
Found at i:1423664 original size:23 final size:23
Alignment explanation
Indices: 1423614--1423658 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1423604 AATCTATTTT
* *
1423614 ATTATATAAGCACTACCTATTAC
1 ATTATATAAACACTACCTAATAC
*
1423637 ATTATATAAACAGTACCTAATA
1 ATTATATAAACACTACCTAATA
1423659 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTATATAAACACTACCTAATAC
Found at i:1424403 original size:34 final size:34
Alignment explanation
Indices: 1424360--1424440 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
1424350 AGTAATAAAT
* * *
1424360 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
1424393 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
1424428 TT-TTTTT-TATTAA
1 TTATTTTTATATTAA
1424441 AATAATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 6 0.14
33 8 0.19
34 13 0.31
35 8 0.19
36 7 0.17
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:1425186 original size:21 final size:21
Alignment explanation
Indices: 1425160--1425204 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1425150 GATTTCTGGG
* *
1425160 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1425181 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1425202 CAA
1 CAA
1425205 ACAAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1426590 original size:14 final size:14
Alignment explanation
Indices: 1426571--1426598 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1426561 GAAAAGAAGC
1426571 TATGTGATACGTGA
1 TATGTGATACGTGA
1426585 TATGTGATACGTGA
1 TATGTGATACGTGA
1426599 ATTAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:1426969 original size:149 final size:149
Alignment explanation
Indices: 1426699--1427162 Score: 831
Period size: 149 Copynumber: 3.1 Consensus size: 149
1426689 GAGTCGAGGG
*
1426699 TCTACGCGGTCCTTCGGGACATATGTATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1426764 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGATCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
*
1426829 TATGGCACTACGGTACAAT
131 TATGGCACTACGGTGCAAT
* *
1426848 TCTACACGGTCCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1426913 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
1426978 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
1426997 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATGTATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* **
1427062 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCGTTATGGACATTTTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
1427127 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1427146 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1427163 TGCAATTATA
Statistics
Matches: 303, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.00
149 302 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATGTATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1427163 original size:23 final size:23
Alignment explanation
Indices: 1427130--1427174 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1427120 ATTTTTATAT
*
1427130 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1427153 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1427175 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1428034 original size:17 final size:17
Alignment explanation
Indices: 1428012--1428065 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1428002 AATGTTAATA
1428012 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1428029 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1428046 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1428063 TTT
1 TTT
1428066 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1430140 original size:21 final size:21
Alignment explanation
Indices: 1430114--1430158 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1430104 GATTTCTGGG
* *
1430114 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1430135 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1430156 CAA
1 CAA
1430159 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1432028 original size:23 final size:23
Alignment explanation
Indices: 1431984--1432028 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1431974 GTCATTATAT
*
1431984 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1432007 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1432029 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1432969 original size:21 final size:21
Alignment explanation
Indices: 1432943--1433015 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
1432933 TATGCCATCT
*
1432943 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
1432964 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
1432985 CCGCTA-GGTTACATGCCTAGC
1 CCGC-AGGGTTACATTCCTAGC
1433006 CCGCAGGGTT
1 CCGCAGGGTT
1433016 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:1433569 original size:28 final size:28
Alignment explanation
Indices: 1433537--1433615 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
1433527 GATAAATGTT
* *
1433537 TTTAAAATACAAATTATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
1433565 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
*
1433593 TTTAAATTTAAAATATAA-ATTAT
1 TTTAAA-ATAAAA-ATAATATTAT
1433616 AGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 32 0.70
29 10 0.22
30 4 0.09
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCGAAA
Found at i:1433627 original size:28 final size:28
Alignment explanation
Indices: 1433537--1433640 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
1433527 GATAAATGTT
* *
1433537 TTTAAAATACAAATTATATTATTCGAAA
1 TTTAAAATATAAATTATATTATTCAAAA
* *
1433565 TTTAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTC---A---AAA
*
1433599 TTTAAAATATAAATTATAGTATTCAAAA
1 TTTAAAATATAAATTATATTATTCAAAA
*
1433627 TTTAACAT-TAAATT
1 TTTAAAATATAAATT
1433641 TCAACTTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.51
31 1 0.02
34 24 0.38
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATATAAATTATATTATTCAAAA
Found at i:1433638 original size:34 final size:32
Alignment explanation
Indices: 1433538--1433638 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 32
1433528 ATAAATGTTT
*
1433538 TTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
*
1433571 ATAAAA-AT-AA-TAT-TATTCGAAATTTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
*
1433599 TTTAAAATATAAATTATAGTATTCAAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
1433634 TTAAA
1 TTAAA
1433639 TTTCAACTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
28 15 0.26
29 5 0.09
30 5 0.09
31 4 0.07
32 4 0.07
33 5 0.09
34 18 0.32
35 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:1437271 original size:30 final size:29
Alignment explanation
Indices: 1437228--1437318 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
1437218 TTCTTTATTA
* *
1437228 TTTTATTAAAAATATTATTAA-TAAGATACAT
1 TTTTA-TATAAATATTATAAATTAA-ATA-AT
* * *
1437259 TTTTATATAAATATGATAAATTTAATATT
1 TTTTATATAAATATTATAAATTAAATAAT
*
1437288 TTTTATATAAATATTATAAATTTAAT-AT
1 TTTTATATAAATATTATAAATTAAATAAT
1437316 TTT
1 TTT
1437319 ATAATTTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 4 0.08
29 26 0.50
30 15 0.29
31 7 0.13
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTATATAAATATTATAAATTAAATAAT
Found at i:1437292 original size:29 final size:29
Alignment explanation
Indices: 1437258--1437318 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
1437248 ATAAGATACA
1437258 TTTTTATATAAATATGATAAATTTAATAT
1 TTTTTATATAAATATGATAAATTTAATAT
*
1437287 TTTTTATATAAATATTATAAATTTAATAT
1 TTTTTATATAAATATGATAAATTTAATAT
1437316 TTT
1 TTT
1437319 ATAATTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTTTATATAAATATGATAAATTTAATAT
Found at i:1437326 original size:15 final size:15
Alignment explanation
Indices: 1437277--1437326 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1437267 AAATATGATA
1437277 AATTTAATATTTT-T
1 AATTTAATATTTTAT
* * *
1437291 TATATAA-ATATTAT
1 AATTTAATATTTTAT
1437305 AAATTTAATATTTTAT
1 -AATTTAATATTTTAT
1437321 AATTTA
1 AATTTA
1437327 TTTTGTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 11 0.41
16 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTAATATTTTAT
Found at i:1444551 original size:22 final size:22
Alignment explanation
Indices: 1444508--1444551 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1444498 ATATGGTTTA
* *
1444508 ATATTTACATCAACCAAGCAAT
1 ATATTTACATCAAACAACCAAT
* *
1444530 ATATTTACATTAAACACCCAAT
1 ATATTTACATCAAACAACCAAT
1444552 TATAGTAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (22 bp):
ATATTTACATCAAACAACCAAT
Found at i:1445191 original size:10 final size:10
Alignment explanation
Indices: 1445176--1445215 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1445166 TTTATCACAC
1445176 CAAATTCTCT
1 CAAATTCTCT
1445186 CAAATTCTCT
1 CAAATTCTCT
1445196 -AAATTTCTCT
1 CAAA-TTCTCT
*
1445206 CAAATACTCT
1 CAAATTCTCT
1445216 ATCTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1446196 original size:12 final size:12
Alignment explanation
Indices: 1446179--1446211 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
1446169 ATTTATAAGA
1446179 GAGGAGAGATGT
1 GAGGAGAGATGT
1446191 GA-G-GAGATGT
1 GAGGAGAGATGT
1446201 GAGGAGAGATG
1 GAGGAGAGATG
1446212 CGAGAATCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (12 bp):
GAGGAGAGATGT
Found at i:1446870 original size:23 final size:23
Alignment explanation
Indices: 1446844--1446893 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1446834 AACAAGTTCA
* *
1446844 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATACGTAGCGCTTAT
**
1446867 ATAATGTAATACGTAGCGCTTAT
1 ATAACATAATACGTAGCGCTTAT
1446890 ATAA
1 ATAA
1446894 TAAAATAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATACGTAGCGCTTAT
Found at i:1446900 original size:23 final size:23
Alignment explanation
Indices: 1446856--1446900 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1446846 AACATATTAG
**
1446856 GTAGCGCTTATATAATGTAATAC
1 GTAGCGCTTATATAATAAAATAC
1446879 GTAGCGCTTATATAATAAAATA
1 GTAGCGCTTATATAATAAAATA
1446901 GACATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAC
Found at i:1446962 original size:87 final size:87
Alignment explanation
Indices: 1446816--1446978 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
1446806 TATGTTATAT
*
1446816 CATTTAACCAGAAATATCAACAAGTTCAATAACATATTAGGTAGCGCTTATATAATGTAATACGT
1 CATTTAACCAGAAATATCAACAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATACGT
1446881 AGCGCTTATATAATAAAATAGA
66 AGCGCTTATATAATAAAATAGA
** * *
1446903 CATTTAACCAGAAATAAT-ATTAAGTACAATAACTTATTAGGTAGCGCTTATATAATGTAATATG
1 CATTTAACCAGAAAT-ATCAACAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATACG
1446967 TAGCGCTTATAT
65 TAGCGCTTATAT
1446979 TGACCTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 68 0.97
88 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (87 bp):
CATTTAACCAGAAATATCAACAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATACGT
AGCGCTTATATAATAAAATAGA
Found at i:1447434 original size:200 final size:198
Alignment explanation
Indices: 1447018--1447496 Score: 536
Period size: 200 Copynumber: 2.4 Consensus size: 198
1447008 TATTCCGGTA
* * *
1447018 ACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTAGGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC--TTT
* * * * *
1447083 --TAAATGCATCGACACTTTATGCGTGCACTTCGTTGGGAATTCATGATGGAAAAAAGTATCGAC
64 AATAAATGTATCGACACTTTATACGTGCACCTCGTTGGGAATTCATGATAGAAAAAAGTATCAAC
* * *
1447146 ACATATTTAAAAAGTGTCGATACATAATGTTGACATATTCTCTCATAAAACAGTTATATTTATAC
129 ACAAATTCAAAAAGTGTCGATACATAATGTTGACATATTCTCTAATAAAACAGTTATATTTATAC
1447211 TGATT
194 TGATT
* * * *
1447216 ACATTGTAAATTTACCTATTATATCATAATTATCAGTTTCGATGTTTTTGAGATCGATACTTCTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTT-TA
* * ** *
1447281 ATAAATGTATCGGCACTTTATACGTGCACCTCGTTTGGGCATTCATTCTAGACAATAAGTATCAA
65 ATAAATGTATCGACACTTTATACGTGCACCTCG-TTGGGAATTCATGATAGA-AAAAAGTATCAA
* * * * * * * * * *
1447346 CACAAATTCCACAAGTGTTGATATAGT-ATGTTTACCTATTTTGTAATTAACCAG-TATATTTAT
128 CACAAATTCAAAAAGTGTCGATACA-TAATGTTGACATATTCTCTAATAAAACAGTTATATTTAT
*
1447409 ACTGGTT
192 ACTGATT
* * * *
1447416 ACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGGTCGATAATTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGAT-ACTTTA
1447481 GA-AAATGTATCGACAC
65 -ATAAATGTATCGACAC
1447497 ATTTTTTTTA
Statistics
Matches: 233, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
196 2 0.01
197 1 0.00
198 53 0.23
199 28 0.12
200 95 0.41
201 53 0.23
202 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (198 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTAA
TAAATGTATCGACACTTTATACGTGCACCTCGTTGGGAATTCATGATAGAAAAAAGTATCAACAC
AAATTCAAAAAGTGTCGATACATAATGTTGACATATTCTCTAATAAAACAGTTATATTTATACTG
ATT
Found at i:1450251 original size:19 final size:19
Alignment explanation
Indices: 1450227--1450274 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1450217 CTACATTCAC
1450227 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
1450246 ATACAAAATTATGAATCAT
1 ATACAAAATTATAAATCAT
1450265 ATACAAAATT
1 ATACAAAATT
1450275 TCCTCTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:1452232 original size:200 final size:200
Alignment explanation
Indices: 1451803--1453190 Score: 1835
Period size: 200 Copynumber: 7.0 Consensus size: 200
1451793 GCGTAATTTA
* * * * * * *
1451803 AAAAAGTATCGATACAACTTTAAAACGTGTCGATACATTATGTAGATCTATTTTCTA-AT-TAAC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-ACATAAAAC
* * * * * * * *
1451866 CGGTATATTTCTACCGGTTACATTGGAGATTTTCCTATTACATGATATTTATCGGT-TTCGATGT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATC-TTATTCGATGT
* * * * * * * *
1451930 TTATGTGATCAATACTTTTTATAAATGTATCGACACTTTATT-GATACACCCCGTTGGGCATTCT
129 TTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCG-TGCACCTCGTTGGCCATTCA
1451994 TTCTGGTC
193 TTCTGGTC
* * *
1452002 AAAATGTATCTACACAAATTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* * *
1452067 GATATATTTATACCGATTACATTGAAAAAATTACATATTACATTATAATTATCTTATTCGATGTT
66 GGTATATTTATACCGGTTACATTG-AAAAATTACCTATTACATTATAATTATCTTATTCGATGTT
* * *
1452132 TTTTGGATCAATACGTTTTATAAATGTATCAACACTTTATTCGTGCACC-CGTTGGCCATTCATT
130 TTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATT
*
1452196 ATGGTC
195 CTGGTC
* * * *
1452202 AAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATT-T-TC-T-TAACT
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* * * * *
1452263 GGTATATTTCTACTGGTTTCATT-ATAAAGTTACCTATTACATTATAATTATCGGT-TTCGATGT
66 GGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATC-TTATTCGATGT
** * * * * *
1452326 TTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATTCGTTCACCCCATTGGGCATTCTT
129 TTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCAT
1452390 TCTGGTC
194 TCTGGTC
* * *
1452397 AAAATGTATCGACACAATTTTAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* *
1452462 CGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTTGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
* * * *
1452527 TTAGGG-TCGATACGTTTAATAAATGTATTGACACTTTATTTGTGCACCTCGTTGGCCATTTATT
131 TT-GGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATT
1452591 CTGGTC
195 CTGGTC
* *
1452597 AAAACGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACT
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
1452662 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
*
1452727 TTGGGATTGATAC-TTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATT
131 TTGGGATCGATACGTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATT
1452791 CTGGTC
195 CTGGTC
* * *
1452797 AAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTATCACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* * *
1452862 AGTATATTTATATCAGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
* * * * * *
1452927 TTGGGATCGATACGTTTAATAAATGAATCGACACTTTATTTGTGTACCTCGTTGGCTATTCATTA
131 TTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATTC
1452992 TGGTC
196 TGGTC
*
1452997 AAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAACC
1 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* * *
1453062 GGTATATTTATACTGGTTATATTG-----TAACCTATTACATTATAATTATCTTATTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
* *
1453122 TTCGGATCGATAC-TTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGATTGGGCATTCAT
131 TTGGGATCGATACGTTTT-ATAAATGTATCGACACTTTATTCGTGCACCTCG-TTGGCCATTCAT
1453186 TCTGG
194 TCTGG
1453191 AGATTACTGA
Statistics
Matches: 1049, Mismatches: 119, Indels: 45
0.86 0.10 0.04
Matches are distributed among these distances:
194 31 0.03
195 192 0.18
196 37 0.04
197 2 0.00
198 4 0.00
199 124 0.12
200 584 0.56
201 74 0.07
202 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (200 bp):
AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
TTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCATTCATTC
TGGTC
Found at i:1453094 original size:595 final size:589
Alignment explanation
Indices: 1451803--1453190 Score: 1839
Period size: 595 Copynumber: 2.3 Consensus size: 589
1451793 GCGTAATTTA
* * * * * *
1451803 AAAAAGTATCGATACAACTTTAAAACGTGTCGATACATTATGTAGATCTATTTTCTA-AT-TAAC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-ACATAAAAC
* * * * *
1451866 CGGTATATTTCTACCGGTTACATTGGAGATTTTCCTATTACATGATATTTATCGGT-TTCGATGT
65 CGGTATATTTATACCGGTTACATTGTA-A----CCTATTACATTATAATTATC-TTATTCGATGT
* * * * *
1451930 TTATGTGATCAATACTTTTTATAAATGTATCGACACTTTA-TTGATACACCCCGTTGGGCATTCT
124 TTTTG-GATCGATACTTTTAATAAATGTATCGACACTTTATTTG-TGCACCTCGTTGGGCATT-T
* *
1451994 -TTCTGGTCAAAATGTATCTACACAAATTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCA
186 ATTCTGGTCAAAACGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCA
1452058 CATAAAACCGATATATTTATACCGATTACATTGAAAAAATTACATATTACATTATAATTATCTTA
251 CATAAAACCGATATATTTATACCGATTACATTGAAAAAATTACATATTACATTATAATTATCTTA
*
1452123 TTCGATGTTTTTTGGATCAATACGTTTTATAAATGTATCAACACTTTATTCGTGCACCCGTTGGC
316 TTCGATGTTTTTGGGATCAATACGTTTTATAAATGTATCAACACTTTATTCGTGCACCCGTTGGC
* * *
1452188 CATTCATTATGGTCAAAACGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTAT
381 CATTCATTATGGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACCTAT
* * ** * * * *
1452253 TTTCTTAACTGGTATATTTCTACTGGTTTCATTATAAAGTTACCTATTACATTATAATTATCGGT
446 TTACTAAACCAGTATATTTATACTAGTTACATTATAAAATTACCTATTACATTATAATTATCGGT
*
1452318 TTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCGTTCACCCCATTGGG
511 TTCGATGTTTTTGGGATCGATACAATTTTAAATGAATCGACACTTTATTCGTTCACCCCATTGGG
* *
1452383 CATTCTTTCTGGTC
576 CATTCATTATGGTC
* * *
1452397 AAAATGTATCGACACAATTTTAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* * *
1452462 CGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCTTATTTGATGTTT
66 GGTATATTTATACCGGTTACATTG-----TAACCTATTACATTATAATTATCTTATTCGATGTTT
* * * *
1452527 TTAGGGTCGATACGTTTAATAAATGTATTGACACTTTATTTGTGCACCTCGTTGGCCATTTATTC
126 TT-GGATCGATACTTTTAATAAATGTATCGACACTTTATTTGTGCACCTCGTTGGGCATTTATTC
*
1452592 TGGTCAAAACGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATA
190 TGGTCAAAACGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCACATA
* * * *
1452657 AAACTGGTATATTTATACCGGTTACATTG-AAAAATTACCTATTACATTATAATTATCTTATTCG
255 AAACCGATATATTTATACCGATTACATTGAAAAAATTACATATTACATTATAATTATCTTATTCG
** *
1452721 ATGTTTTTGGGATTGATAC-TTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGCCA
320 ATGTTTTTGGGATCAATACGTTTT-ATAAATGTATCAACACTTTATTCGTGCACC-CGTTGGCCA
*
1452785 TTCATTCTGGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTA
383 TTCATTATGGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATT-
1452850 TCACATAAAACCAGTATATTTATA-TCAGTTACATTGA-AAAATTACCTATTACATTATAATTAT
447 T-AC-T-AAACCAGTATATTTATACT-AGTTACATT-ATAAAATTACCTATTACATTATAATTAT
* * *
1452913 C-TTATTCGATGTTTTTGGGATCGATAC-GTTTAATAAATGAATCGACACTTTATTTGTGT-ACC
507 CGGT-TTCGATGTTTTTGGGATCGATACAATTT--TAAATGAATCGACACTTTATTCGT-TCACC
* *
1452975 TCGTT-GGCTATTCATTATGGTC
568 CCATTGGGC-ATTCATTATGGTC
* *
1452997 AAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* *
1453062 GGTATATTTATACTGGTTATATTGTAACCTATTACATTATAATTATCTTATTCGATGTTTTTCGG
66 GGTATATTTATACCGGTTACATTGTAACCTATTACATTATAATTATCTTATTCGATGTTTTT-GG
* *
1453127 ATCGATACTTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGATTGGGCATTCATTCTGG
130 ATCGATACTTTTAATAAATGTATCGACACTTTATTTGTGCACCTCG-TTGGGCATTTATTCTGG
1453191 AGATTACTGA
Statistics
Matches: 697, Mismatches: 72, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
593 5 0.01
594 131 0.19
595 338 0.48
596 20 0.03
597 1 0.00
598 6 0.01
599 73 0.10
600 122 0.18
601 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (589 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
GGTATATTTATACCGGTTACATTGTAACCTATTACATTATAATTATCTTATTCGATGTTTTTGGA
TCGATACTTTTAATAAATGTATCGACACTTTATTTGTGCACCTCGTTGGGCATTTATTCTGGTCA
AAACGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCACATAAAACCG
ATATATTTATACCGATTACATTGAAAAAATTACATATTACATTATAATTATCTTATTCGATGTTT
TTGGGATCAATACGTTTTATAAATGTATCAACACTTTATTCGTGCACCCGTTGGCCATTCATTAT
GGTCAAAACGTATCAACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTACTAAACC
AGTATATTTATACTAGTTACATTATAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACAATTTTAAATGAATCGACACTTTATTCGTTCACCCCATTGGGCATTCATTAT
GGTC
Found at i:1453935 original size:24 final size:24
Alignment explanation
Indices: 1453903--1453953 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1453893 CGAAATTTAT
1453903 ATTGAAATTCAAACTCAAACTCAA
1 ATTGAAATTCAAACTCAAACTCAA
* * *
1453927 ATTGAAATTTAAATTCAAACTCCA
1 ATTGAAATTCAAACTCAAACTCAA
1453951 ATT
1 ATT
1453954 ACATATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAACTCAA
Found at i:1455305 original size:12 final size:12
Alignment explanation
Indices: 1455272--1455311 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1455262 CTTGTTTGGA
* *
1455272 TCATCATAATCA
1 TCATCATCATCT
1455284 TCATCATCATCT
1 TCATCATCATCT
*
1455296 TCATCGTCATCT
1 TCATCATCATCT
1455308 TCAT
1 TCAT
1455312 TGATCGCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.40
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:1456555 original size:25 final size:25
Alignment explanation
Indices: 1456521--1456568 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1456511 ACATTGGAAT
1456521 ACAAACACATTAACAAAAAAAAAAC
1 ACAAACACATTAACAAAAAAAAAAC
**
1456546 ACAAACACATTAAGGAAAAAAAA
1 ACAAACACATTAACAAAAAAAAA
1456569 GAGTCCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.08
Consensus pattern (25 bp):
ACAAACACATTAACAAAAAAAAAAC
Found at i:1457169 original size:201 final size:201
Alignment explanation
Indices: 1456761--1457929 Score: 1664
Period size: 201 Copynumber: 5.8 Consensus size: 201
1456751 CGCAAAATTT
* * * * * *
1456761 AAAAAAGTATCGACA-AAATTTAAAAAGTGTTGACACATTATGTATACCTATTCTCTCTTAAAAC
1 AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
1456825 CGATATATTTATATCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
66 CGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* ** * * *
1456890 TTTGGGATCAATACTTTTTATAAATAAATCGACATTTTATGCGTGCACTTAGTTTGGGCATTTAT
131 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
*
1456955 TATGGA
196 TCTGGA
* * * *
1456961 CAAAAAATATCGACACAAATTTAAAAAGTGTCAATACATTATGTAGACCTATTCTCTCTTAAAAC
1 AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * * * *
1457026 TGGTATATTTATACCAGTTACATTGAAAAA-TACATATTACATTATAAATATGGGTTTCAATGTT
66 CGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
1457090 TTTGGGATCGATATTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTCAT
131 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
1457155 TCTGGA
196 TCTGGA
* *
1457161 TAAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAA
1 -AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* ** * * * *
1457226 CTGATATATTTATGTCGGTTTCATTGAAAAATTACATATTACATTATAATTATAGCTTTCGATGT
65 CCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* * * *
1457291 TTTTGGGATCGATACTTTTTGTAAATGTATCGACACTTTATGCGTGCACTTAGTTTAGACATTCA
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCA
1457356 TTCT-GA
195 TTCTGGA
* * * *
1457362 ACAAAAAGTATCGACACAAATTCCACAAGTGTCGCTACATTATGTAGACCTATTCTCTCATAAAA
1 A-AAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
1457427 CCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
65 CCGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* *
1457492 TTTTAGGATCGATACTTTTTATAATTGTATCGACACTTTATGCGTGCACTCCT--TTTGGGCATT
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCA--CCTAGTTTGGGCATT
1457555 CATTCTGGA
193 CATTCTGGA
* ** * * *
1457564 CAAAAAATATTTACACAAATTCCACAAGTGTCGATACATTATGTAGACCAATTCTCTCATAAAAC
1 AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
1457629 CGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
66 CGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
1457694 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCATTTTGGGCATTCAT
131 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
1457759 TCTGGA
196 TCTGGA
* * * * *
1457765 CAAAAAGTATCGATACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
1 AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
1457830 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
66 CGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * *
1457895 TTTGTGATCGATATTTTTTATAACTGTAGCGACAC
131 TTTGGGATCGATACTTTTTATAAATGTATCGACAC
1457930 ATATGTTTAC
Statistics
Matches: 879, Mismatches: 81, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
199 2 0.00
200 107 0.12
201 674 0.77
202 94 0.11
203 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (201 bp):
AAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
CGATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
TCTGGA
Found at i:1458402 original size:19 final size:19
Alignment explanation
Indices: 1458378--1458426 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1458368 TTACATTCCC
1458378 ATACAAAATTATAAATTGT
1 ATACAAAATTATAAATTGT
*
1458397 ATACAAAATTATAAATTTT
1 ATACAAAATTATAAATTGT
1458416 ATACAAAATTA
1 ATACAAAATTA
1458427 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACAAAATTATAAATTGT
Found at i:1460003 original size:18 final size:18
Alignment explanation
Indices: 1459980--1460018 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1459970 TCCTCCTCAT
1459980 TTCCTCAATCTTTTCTTC
1 TTCCTCAATCTTTTCTTC
*
1459998 TTCCTCCATCTTTTCTTC
1 TTCCTCAATCTTTTCTTC
1460016 TTC
1 TTC
1460019 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCAATCTTTTCTTC
Done.